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GeneE
10 sources retrieved Β· Most recent: April 2026 Β· Index updated 14 days ago
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PPT1
palmitoyl-protein thioesterase 1
Chromosome 1 Β· 1p34.2
NCBI Gene: 5538Ensembl: ENSG00000131238.18HGNC: HGNC:9325UniProt: P50897
114PubMed Papers
21Diseases
0Drugs
173Pathogenic Variants
RESEARCH IMPACT
Variant-Rich
CLINICAL
OMIM Disease Gene
DATA QUALITY
βœ“ Experimental GO Evidenceβœ“ Swiss-Prot Reviewed
receptor-mediated endocytosispinocytosisprotein bindingpalmitoyl-(protein) hydrolase activityneuronal ceroid lipofuscinosis 1neuronal ceroid lipofuscinosisCLN1 diseasegenetic disorder
✦AI Summary

PPT1 (palmitoyl-protein thioesterase 1) is a lysosomal enzyme that catalyzes the depalmitoylation of S-palmitoylated proteins, removing palmitate groups from cysteine residues to regulate protein stability and localization 1. PPT1 demonstrates substrate specificity for palmitoylated proteins and palmitoylcysteine, distinguishing it from PPT2 1. The enzyme plays critical roles in multiple cellular processes by modulating protein palmitoylation status. PPT1 regulates NLRP3 inflammasome activation by controlling NLRP3 protein stability through depalmitoylation, with PPT1 inhibition leading to increased NLRP3 palmitoylation and enhanced inflammatory responses 2. In angiogenesis, PPT1 modulates Gpx1 protein stability through depalmitoylation, with PPT1 deficiency resulting in reduced pathological angiogenesis 3. PPT1 also regulates autoimmune responses by depalmitoylating TLR9, facilitating its release from UNC93B1 and promoting inflammatory cytokine production 4. Disease relevance includes mutations causing neuronal ceroid lipofuscinosis type 1 (CLN1), a severe neurodegenerative disorder characterized by motor decline, epilepsy, and visual loss 5. Clinically, PPT1 represents a therapeutic target, with inhibitors like GNS561 showing efficacy against hepatocellular carcinoma through lysosomal dysfunction and autophagy blockade 6.

Sources cited
1
PPT1 catalyzes depalmitoylation of S-palmitoylated proteins and has substrate specificity different from PPT2
PMID: 36018061
2
PPT1 regulates NLRP3 inflammasome activation by controlling NLRP3 protein stability through depalmitoylation
PMID: 37480849
3
PPT1 modulates Gpx1 protein stability and angiogenesis through depalmitoylation
PMID: 39423458
4
PPT1 regulates TLR9 signaling and autoimmune responses by depalmitoylating TLR9
PMID: 38169466
5
PPT1 mutations cause neuronal ceroid lipofuscinosis type 1 with neurodegenerative symptoms
PMID: 21990111
6
PPT1 inhibitor GNS561 shows therapeutic efficacy against hepatocellular carcinoma
PMID: 34740311
Disease Associationsβ“˜21
neuronal ceroid lipofuscinosis 1Open Targets
0.84Strong
neuronal ceroid lipofuscinosisOpen Targets
0.68Moderate
CLN1 diseaseOpen Targets
0.59Moderate
genetic disorderOpen Targets
0.53Moderate
Alzheimer diseaseOpen Targets
0.47Moderate
neurodegenerative diseaseOpen Targets
0.46Moderate
lysosomal storage diseaseOpen Targets
0.46Moderate
Parkinson diseaseOpen Targets
0.46Moderate
multiple sclerosisOpen Targets
0.46Moderate
retinitis pigmentosaOpen Targets
0.43Moderate
eye diseaseOpen Targets
0.37Weak
neurodevelopmental disorder with dysmorphic facies and distal limb anomaliesOpen Targets
0.34Weak
Abnormality of the nervous systemOpen Targets
0.27Weak
spastic ataxiaOpen Targets
0.27Weak
streptococcal infectionOpen Targets
0.21Weak
Intellectual disabilityOpen Targets
0.14Weak
neoplasmOpen Targets
0.10Weak
hepatocellular carcinomaOpen Targets
0.10Suggestive
oral squamous cell carcinomaOpen Targets
0.09Suggestive
melanomaOpen Targets
0.08Suggestive
Ceroid lipofuscinosis, neuronal, 1UniProt
Pathogenic Variants173
NM_000310.4(PPT1):c.451C>T (p.Arg151Ter)Pathogenic
Neuronal ceroid lipofuscinosis 1|not provided|Neuronal Ceroid-Lipofuscinosis, Recessive|Neuronal ceroid lipofuscinosis|Inborn genetic diseases|PPT1-related disorder
β˜…β˜…β˜†β˜†2026β†’ Residue 151
NM_000310.4(PPT1):c.413C>T (p.Ser138Leu)Pathogenic
Neuronal ceroid lipofuscinosis 1|Neuronal ceroid lipofuscinosis
β˜…β˜…β˜†β˜†2026β†’ Residue 138
NM_000310.4(PPT1):c.223A>C (p.Thr75Pro)Pathogenic
Neuronal ceroid lipofuscinosis 1|not provided|Retinitis pigmentosa|Inborn genetic diseases|PPT1-related disorder
β˜…β˜…β˜†β˜†2026β†’ Residue 75
NM_000310.4(PPT1):c.424C>T (p.Gln142Ter)Pathogenic
not provided|Neuronal ceroid lipofuscinosis 1
β˜…β˜…β˜†β˜†2026β†’ Residue 142
NM_000310.4(PPT1):c.29T>A (p.Leu10Ter)Pathogenic
Neuronal ceroid lipofuscinosis 1|not provided|Inborn genetic diseases|Neuronal ceroid lipofuscinosis
β˜…β˜…β˜†β˜†2026β†’ Residue 10
NM_000310.4(PPT1):c.272A>C (p.Gln91Pro)Pathogenic
Neuronal ceroid lipofuscinosis 1|Neuronal ceroid lipofuscinosis
β˜…β˜…β˜†β˜†2026β†’ Residue 91
NM_000310.4(PPT1):c.289_290del (p.Gln97fs)Pathogenic
Neuronal ceroid lipofuscinosis 1
β˜…β˜…β˜†β˜†2025β†’ Residue 97
NM_000310.4(PPT1):c.541G>T (p.Val181Leu)Pathogenic
Neuronal ceroid lipofuscinosis 1|not provided|Neuronal ceroid lipofuscinosis|See cases
β˜…β˜…β˜†β˜†2025β†’ Residue 181
NM_000310.4(PPT1):c.541G>A (p.Val181Met)Pathogenic
Neuronal ceroid lipofuscinosis 1|Retinitis pigmentosa|not provided|Inborn genetic diseases
β˜…β˜…β˜†β˜†2025β†’ Residue 181
NM_000310.4(PPT1):c.364A>T (p.Arg122Trp)Pathogenic
Neuronal ceroid lipofuscinosis 1|not provided|Inborn genetic diseases|Neuronal ceroid lipofuscinosis
β˜…β˜…β˜†β˜†2025β†’ Residue 122
NM_000310.4(PPT1):c.325T>G (p.Tyr109Asp)Pathogenic
Neuronal ceroid lipofuscinosis 1|not provided
β˜…β˜…β˜†β˜†2025β†’ Residue 109
NM_000310.4(PPT1):c.169dup (p.Met57fs)Pathogenic
Neuronal ceroid lipofuscinosis 1|Neuronal ceroid lipofuscinosis|not provided
β˜…β˜…β˜†β˜†2025β†’ Residue 57
NM_000310.4(PPT1):c.3G>A (p.Met1Ile)Pathogenic
Neuronal ceroid lipofuscinosis 1|Neuronal ceroid lipofuscinosis|not provided|Inborn genetic diseases
β˜…β˜…β˜†β˜†2025β†’ Residue 1
NM_000310.4(PPT1):c.29_41del (p.Leu10fs)Pathogenic
Neuronal ceroid lipofuscinosis 1
β˜…β˜…β˜†β˜†2025β†’ Residue 10
NM_000310.4(PPT1):c.629_630dup (p.Ile211fs)Pathogenic
Neuronal ceroid lipofuscinosis 1
β˜…β˜…β˜†β˜†2025β†’ Residue 211
NM_000310.4(PPT1):c.739T>C (p.Tyr247His)Pathogenic
Neuronal ceroid lipofuscinosis 1|not provided|Neuronal ceroid lipofuscinosis
β˜…β˜…β˜†β˜†2025β†’ Residue 247
NM_000310.4(PPT1):c.353G>A (p.Gly118Asp)Likely pathogenic
Inborn genetic diseases|Neuronal ceroid lipofuscinosis|Neuronal ceroid lipofuscinosis 1
β˜…β˜…β˜†β˜†2025β†’ Residue 118
NM_000310.4(PPT1):c.163A>T (p.Lys55Ter)Pathogenic
Neuronal ceroid lipofuscinosis 1
β˜…β˜…β˜†β˜†2025β†’ Residue 55
NM_000310.4(PPT1):c.490C>T (p.Arg164Ter)Pathogenic
Neuronal ceroid lipofuscinosis 1|not provided
β˜…β˜…β˜†β˜†2025β†’ Residue 164
NM_000310.4(PPT1):c.550G>A (p.Glu184Lys)Pathogenic
Neuronal ceroid lipofuscinosis 1|not provided|Inborn genetic diseases|Neuronal ceroid lipofuscinosis
β˜…β˜…β˜†β˜†2025β†’ Residue 184
View on ClinVar β†—
Related Genes
FLI1Protein interaction96%MECRProtein interaction92%TPP1Protein interaction84%CTSDProtein interaction84%CLN8Protein interaction84%ACSL1Protein interaction84%
Tissue Expression6 tissues
Bone Marrow
100%
Brain
89%
Lung
57%
Heart
40%
Ovary
37%
Liver
13%
Gene Interaction Network
Click a node to explore
PPT1FLI1MECRTPP1CTSDCLN8ACSL1
PROTEIN STRUCTURE
Preparing viewer…
PDB3GRO Β· 2.53 Γ… Β· X-ray
View on RCSB β†—
Constraintβ“˜
LOEUFβ“˜
0.73LoF Tolerant
pLIβ“˜
0.00Tolerant
Observed/Expected LoF0.52 [0.38–0.73]
RankingsWhere PPT1 stands among ~20K protein-coding genes
  • #4,163of 20,598
    Most Researched114 Β· top quartile
  • #421of 5,498
    Most Pathogenic Variants173 Β· top 10%
  • #5,707of 17,882
    Most Constrained (LOEUF)0.73
Genes detectedPPT1
Sources retrieved10 papers
Response timeβ€”
πŸ“„ Sources
10β–Ό
1
Protein palmitoylation in cancer: molecular functions and therapeutic potential.
PMID: 36018061
Mol Oncol Β· 2023
1.00
2
Targeting phenylpyruvate restrains excessive NLRP3 inflammasome activation and pathological inflammation in diabetic wound healing.
PMID: 37480849
Cell Rep Med Β· 2023
0.90
3
Emerging dimensions of autophagy in melanoma.
PMID: 38497492
Autophagy Β· 2024
0.80
4
Enhancing Gpx1 palmitoylation to inhibit angiogenesis by targeting PPT1.
PMID: 39423458
Redox Biol Β· 2024
0.70
5
Cyclical palmitoylation regulates TLR9 signalling and systemic autoimmunity in mice.
PMID: 38169466
Nat Commun Β· 2024
0.60